16S rRNA gene sequencing for bacterial identification in the diagnostic laboratory: pluses, perils, and pitfalls

doi:10.1128/JCM.01228-07

Review

. 2007 Sep;45(9):2761-4.

doi: 10.1128/JCM.01228-07. Epub 2007 Jul 11.

16S rRNA gene sequencing for bacterial identification in the diagnostic laboratory: pluses, perils, and pitfalls

J Michael Janda¹, Sharon L Abbott

Affiliations

Affiliation

¹ Microbial Diseases Laboratory, Division of Communicable Disease Control, California Department of Public Health, Richmond, California 94804, USA. JohnMichael.Janda@cdph.ca.gov

PMID: 17626177
PMCID: PMC2045242
DOI: 10.1128/JCM.01228-07

Review

16S rRNA gene sequencing for bacterial identification in the diagnostic laboratory: pluses, perils, and pitfalls

J Michael Janda et al. J Clin Microbiol. 2007 Sep.

. 2007 Sep;45(9):2761-4.

doi: 10.1128/JCM.01228-07. Epub 2007 Jul 11.

Authors

J Michael Janda¹, Sharon L Abbott

Affiliation

¹ Microbial Diseases Laboratory, Division of Communicable Disease Control, California Department of Public Health, Richmond, California 94804, USA. JohnMichael.Janda@cdph.ca.gov

PMID: 17626177
PMCID: PMC2045242
DOI: 10.1128/JCM.01228-07

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References

1. Ashelford, K. E., N. A. Chuzhanova, J. C. Fry, A. J. Jones, and A. J. Weightman. 2005. At least 1 in 20 16S rRNA sequence records currently held in public repositories is estimated to contain substantial anomalies. Appl. Environ. Microbiol. 71:7724-7736. - PMC - PubMed
1. Bosshard, P. P., R. Zbinden, S. Abels, B. Böddinghaus, M. Altwegg, and E. C. Böttger. 2006. 16S rRNA gene sequencing versus the API 20 NE system and the Vitek 2 ID-GNB card for identification of nonfermenting gram-negative bacteria in the clinical laboratory. J. Clin. Microbiol. 44:1359-1366. - PMC - PubMed
1. Boudewijns, M., J. M. Bakkers, P. D. J. Sturm, and W. J. G. Melchers. 2006. 16S rRNA gene sequencing and the routine clinical microbiology laboratory: a perfect marriage? J. Clin. Microbiol. 44:3469-3470. - PMC - PubMed
1. Clayton, R. A., G. Sutton, P. S. Hinkle, Jr., C. Bult, and C. Fields. 1995. Intraspecific variation in small-subunit rRNA sequences in GenBank: why single sequences may not adequately represent prokaryotic taxa. Int. J. Syst. Bacteriol. 45:595-599. - PubMed
1. Drancourt, M., C. Bollet, A. Carlioz, R. Martelin, J.-P. Gayral, and D. Raoult. 2000. 16S ribosomal DNA sequence analysis of a large collection of environmental and clinical unidentifiable bacterial isolates. J. Clin. Microbiol. 38:3623-3630. - PMC - PubMed

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[1] Ashelford, K. E., N. A. Chuzhanova, J. C. Fry, A. J. Jones, and A. J. Weightman. 2005. At least 1 in 20 16S rRNA sequence records currently held in public repositories is estimated to contain substantial anomalies. Appl. Environ. Microbiol. 71:7724-7736. - PMC - PubMed

[2] Ashelford, K. E., N. A. Chuzhanova, J. C. Fry, A. J. Jones, and A. J. Weightman. 2005. At least 1 in 20 16S rRNA sequence records currently held in public repositories is estimated to contain substantial anomalies. Appl. Environ. Microbiol. 71:7724-7736. - PMC - PubMed

[3] Bosshard, P. P., R. Zbinden, S. Abels, B. Böddinghaus, M. Altwegg, and E. C. Böttger. 2006. 16S rRNA gene sequencing versus the API 20 NE system and the Vitek 2 ID-GNB card for identification of nonfermenting gram-negative bacteria in the clinical laboratory. J. Clin. Microbiol. 44:1359-1366. - PMC - PubMed

[4] Bosshard, P. P., R. Zbinden, S. Abels, B. Böddinghaus, M. Altwegg, and E. C. Böttger. 2006. 16S rRNA gene sequencing versus the API 20 NE system and the Vitek 2 ID-GNB card for identification of nonfermenting gram-negative bacteria in the clinical laboratory. J. Clin. Microbiol. 44:1359-1366. - PMC - PubMed

[5] Boudewijns, M., J. M. Bakkers, P. D. J. Sturm, and W. J. G. Melchers. 2006. 16S rRNA gene sequencing and the routine clinical microbiology laboratory: a perfect marriage? J. Clin. Microbiol. 44:3469-3470. - PMC - PubMed

[6] Boudewijns, M., J. M. Bakkers, P. D. J. Sturm, and W. J. G. Melchers. 2006. 16S rRNA gene sequencing and the routine clinical microbiology laboratory: a perfect marriage? J. Clin. Microbiol. 44:3469-3470. - PMC - PubMed

[7] Clayton, R. A., G. Sutton, P. S. Hinkle, Jr., C. Bult, and C. Fields. 1995. Intraspecific variation in small-subunit rRNA sequences in GenBank: why single sequences may not adequately represent prokaryotic taxa. Int. J. Syst. Bacteriol. 45:595-599. - PubMed

[8] Clayton, R. A., G. Sutton, P. S. Hinkle, Jr., C. Bult, and C. Fields. 1995. Intraspecific variation in small-subunit rRNA sequences in GenBank: why single sequences may not adequately represent prokaryotic taxa. Int. J. Syst. Bacteriol. 45:595-599. - PubMed

[9] Drancourt, M., C. Bollet, A. Carlioz, R. Martelin, J.-P. Gayral, and D. Raoult. 2000. 16S ribosomal DNA sequence analysis of a large collection of environmental and clinical unidentifiable bacterial isolates. J. Clin. Microbiol. 38:3623-3630. - PMC - PubMed

[10] Drancourt, M., C. Bollet, A. Carlioz, R. Martelin, J.-P. Gayral, and D. Raoult. 2000. 16S ribosomal DNA sequence analysis of a large collection of environmental and clinical unidentifiable bacterial isolates. J. Clin. Microbiol. 38:3623-3630. - PMC - PubMed

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16S rRNA gene sequencing for bacterial identification in the diagnostic laboratory: pluses, perils, and pitfalls

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16S rRNA gene sequencing for bacterial identification in the diagnostic laboratory: pluses, perils, and pitfalls

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